<?xml version="1.0" encoding="UTF-8"?>
<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:noNamespaceSchemaLocation="https://ftp.ebi.ac.uk/pub/databases/em_ebi/emdb_related/emdb-schemas/emdb_schemas/v3/v3_0_11_7/emdb.xsd" version="3.0.11.7" emdb_id="EMD-72625">
    <admin>
        <current_status>
            <date>2026-09-02</date>
            <code>REL</code>
            <processing_site>RCSB</processing_site>
        </current_status>
        <revision_history>
            <revision version="1.0" date="2026-09-02">
                <change_list>
                    <model>
                        <revision_type>INITIAL_RELEASE</revision_type>
                        <provider>REPOSITORY</provider>
                    </model>
                    <metadata>
                        <revision_type>INITIAL_RELEASE</revision_type>
                        <provider>REPOSITORY</provider>
                    </metadata>
                </change_list>
            </revision>
        </revision_history>
        <sites>
            <deposition>RCSB</deposition>
            <last_processing>RCSB</last_processing>
        </sites>
        <key_dates>
            <deposition>2025-09-09</deposition>
            <header_release>2026-09-02</header_release>
            <map_release>2026-09-02</map_release>
            <update>2026-09-02</update>
        </key_dates>
        <grant_support>
            <grant_reference>
                <funding_body>National Health and Medical Research Council (NHMRC, Australia)</funding_body>
                <code>1193647</code>
                <country>Australia</country>
            </grant_reference>
        </grant_support>
        <title>Structure of fimbriae-like lipoprotein by Cryo Electron Microscopy</title>
        <authors_list>
            <author>Hanssen E</author>
            <author>Gorasia DG</author>
            <author>Reynolds EC</author>
            <author>Veith PD</author>
            <author>Reynolds EC</author>
        </authors_list>
        <keywords>ffp1, porphyromonas gingivalis, pili, CELL ADHESION</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author ORCID="0000-0002-6618-4856" order="1">Reynolds EC</author>
                    <author ORCID="0000-0002-6223-5513" order="2">Gorasia DG</author>
                    <author order="3">Slakeski N</author>
                    <author order="4">Gui M</author>
                    <author order="5">Chen Y-Y</author>
                    <author order="6">Moore C</author>
                    <author order="7">Catmull D</author>
                    <author order="8">Veith P</author>
                    <author order="9">Dashper S</author>
                    <author ORCID="0000-0002-4064-1844" order="10">Hanssen E</author>
                    <title>Novel quadruple helical assembly of a Type V pilin in Porphyromonas gingivalis</title>
                    <journal_abbreviation>Res Sq</journal_abbreviation>
                    <country>US</country>
                    <year>2026</year>
                    <external_references type="ISSN">2693-5015</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <pdb_list>
            <pdb_reference>
                <pdb_id>9y6o</pdb_id>
                <relationship>
                    <in_frame>FULLOVERLAP</in_frame>
                </relationship>
            </pdb_reference>
        </pdb_list>
        <other_db_list>
            <db_reference>
                <db_name>EMDB</db_name>
                <accession_id>EMD-72625</accession_id>
                <content_type>associated EM volume</content_type>
                <details>Structure of fimbriae-like lipoprotein by Cryo Electron Microscopy</details>
            </db_reference>
        </other_db_list>
    </crossreferences>
    <sample>
        <name>ffp1 a type V pilin</name>
        <supramolecule_list>
            <complex_supramolecule supramolecule_id="1">
                <name>ffp1 a type V pilin</name>
                <parent>0</parent>
                <macromolecule_list>
                    <macromolecule>
                        <macromolecule_id>1</macromolecule_id>
                    </macromolecule>
                </macromolecule_list>
                <natural_source database="NCBI">
                    <organism ncbi="242619">Porphyromonas gingivalis</organism>
                    <strain>W83</strain>
                </natural_source>
            </complex_supramolecule>
        </supramolecule_list>
        <macromolecule_list>
            <protein_or_peptide macromolecule_id="1">
                <name>Minor fimbrium subunit Mfa1 C-terminal domain-containing protein</name>
                <natural_source database="NCBI">
                    <organism ncbi="242619">Porphyromonas gingivalis W83</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.046953746</theoretical>
                </molecular_weight>
                <number_of_copies>2</number_of_copies>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>KGGTHDPLQSVRRITFLFFHETDSKLLLSRTVEPTSDLSFDLKIPKQNYRLAVLVNSGSSYAAIIPEILLPTTAIQATSQ
TLFESFAAYETGNITSESEHSVTMANDQGLIKLLSTQIVDKKSQLSEASRLSVNVEPCLARVLVVGKPTISGGEYTGDVS
CYVIDVVPQRIYPLRHLAKLSSGTNEAYGDNSPLADRYASSWAEESIAAGVAYNNVYGYVKADMFDNPVAATKMQEKKTD
FNLNQVAIYTKESTVNPKNYFTAYVPRVVLRAKYVPHGIPGVKPDEGWIEFQGRKMSLEQFKKYVDNPVSAGMALADSIK
KAKADNSLVYTGGFVSHGIQFYYKSQNYYAIPIRHFDDEKAPNKDSYGRFGLVRNNEYILSVKSITGAGSPIVPPVSTTE
AIEKEGYLPASIAVNQTTAHEQDVDL</string>
                    <external_references type="UNIPROTKB">Q7MTR3</external_references>
                </sequence>
            </protein_or_peptide>
        </macromolecule_list>
    </sample>
    <structure_determination_list>
        <structure_determination structure_determination_id="1">
            <method>helical</method>
            <aggregation_state>filament</aggregation_state>
            <specimen_preparation_list>
                <helical_preparation preparation_id="1">
                    <buffer>
                        <ph>7.5</ph>
                        <component>
                            <concentration units="mM">50.0</concentration>
                            <formula>C4H11NO3.HCl</formula>
                            <name>tris-HCL</name>
                        </component>
                        <component>
                            <concentration units="mM">50.0</concentration>
                            <formula>NaCl</formula>
                            <name>Sodium Chloride</name>
                        </component>
                        <component>
                            <concentration units="%">0.5</concentration>
                            <formula>C24H46O11</formula>
                            <name>n-Dodecyl-B-D-maltoside</name>
                        </component>
                        <component>
                            <concentration units="M">1.0</concentration>
                            <formula>CH4N2O</formula>
                            <name>Urea</name>
                        </component>
                    </buffer>
                    <grid>
                        <model>Quantifoil R1.2/1.3</model>
                        <material>COPPER</material>
                        <pretreatment>
                            <type>GLOW DISCHARGE</type>
                            <time units="s">15</time>
                            <atmosphere>AIR</atmosphere>
                        </pretreatment>
                        <details>15 mA</details>
                    </grid>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_humidity units="percentage">95</chamber_humidity>
                        <chamber_temperature units="K">295</chamber_temperature>
                        <instrument>FEI VITROBOT MARK IV</instrument>
                        <details>Blot Force -1
Blot time 3 sec
temp 22 degres C
sample size 4ul. </details>
                    </vitrification>
                </helical_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <helical_microscopy microscopy_id="1">
                    <microscope>TFS KRIOS</microscope>
                    <illumination_mode>FLOOD BEAM</illumination_mode>
                    <imaging_mode>BRIGHT FIELD</imaging_mode>
                    <electron_source>FIELD EMISSION GUN</electron_source>
                    <acceleration_voltage units="kV">300</acceleration_voltage>
                    <c2_aperture_diameter units="µm">50.0</c2_aperture_diameter>
                    <nominal_cs units="mm">2.7</nominal_cs>
                    <nominal_defocus_min units="µm">0.6</nominal_defocus_min>
                    <nominal_defocus_max units="µm">1.6</nominal_defocus_max>
                    <nominal_magnification>64000.0</nominal_magnification>
                    <specimen_holder_model>FEI TITAN KRIOS AUTOGRID HOLDER</specimen_holder_model>
                    <cooling_holder_cryogen>NITROGEN</cooling_holder_cryogen>
                    <alignment_procedure>
                        <coma_free/>
                    </alignment_procedure>
                    <image_recording_list>
                        <image_recording image_recording_id="1">
                            <film_or_detector_model>GATAN K3 BIOQUANTUM (6k x 4k)</film_or_detector_model>
                            <number_grids_imaged>1</number_grids_imaged>
                            <number_real_images>8909</number_real_images>
                            <average_exposure_time units="s">5.34</average_exposure_time>
                            <average_electron_dose_per_image units="e/Å^2">54.0</average_electron_dose_per_image>
                        </image_recording>
                    </image_recording_list>
                </helical_microscopy>
            </microscopy_list>
            <helical_processing image_processing_id="1">
                <image_recording_id>1</image_recording_id>
                <final_reconstruction>
                    <number_classes_used>9</number_classes_used>
                    <applied_symmetry>
                        <helical_parameters>
                            <delta_z units="Å">60.43</delta_z>
                            <delta_phi units="deg">25.86</delta_phi>
                            <axial_symmetry>C4</axial_symmetry>
                        </helical_parameters>
                    </applied_symmetry>
                    <resolution units="Å" res_type="BY AUTHOR">3.2</resolution>
                    <resolution_method>FSC 0.143 CUT-OFF</resolution_method>
                    <software_list>
                        <software>
                            <name>cryoSPARC</name>
                        </software>
                    </software_list>
                    <number_images_used>20069</number_images_used>
                </final_reconstruction>
                <ctf_correction>
                    <software_list>
                        <software>
                            <name>cryoSPARC</name>
                        </software>
                    </software_list>
                    <type>PHASE FLIPPING ONLY</type>
                </ctf_correction>
                <segment_selection>
                    <number_selected>21738</number_selected>
                    <software_list>
                        <software>
                            <name>cryoSPARC</name>
                        </software>
                    </software_list>
                </segment_selection>
                <startup_model type_of_model="NONE"/>
                <final_angle_assignment>
                    <type>NOT APPLICABLE</type>
                    <software_list>
                        <software>
                            <name>cryoSPARC</name>
                        </software>
                    </software_list>
                </final_angle_assignment>
            </helical_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="256001">
        <file>emd_72625.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>400</col>
            <row>400</row>
            <sec>400</sec>
        </dimensions>
        <origin>
            <col>0</col>
            <row>0</row>
            <sec>0</sec>
        </origin>
        <spacing>
            <x>400</x>
            <y>400</y>
            <z>400</z>
        </spacing>
        <cell>
            <a units="Å">528.0</a>
            <b units="Å">528.0</b>
            <c units="Å">528.0</c>
            <alpha units="deg">90.0</alpha>
            <beta units="deg">90.0</beta>
            <gamma units="deg">90.0</gamma>
        </cell>
        <axis_order>
            <fast>X</fast>
            <medium>Y</medium>
            <slow>Z</slow>
        </axis_order>
        <statistics>
            <minimum>-0.31675744</minimum>
            <maximum>0.9247663</maximum>
            <average>0.0027998532</average>
            <std>0.030896334</std>
        </statistics>
        <pixel_spacing>
            <x units="Å">1.32</x>
            <y units="Å">1.32</y>
            <z units="Å">1.32</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.2</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <label>::::EMDATABANK.org::::EMD-72625::::</label>
    </map>
    <interpretation>
        <modelling_list>
            <modelling>
                <initial_model>
                    <access_code>AF-Q7MTR3-F1-v4</access_code>
                    <chain>
                        <source_name>AlphaFold</source_name>
                        <initial_model_type>in silico model</initial_model_type>
                    </chain>
                </initial_model>
                <refinement_protocol>RIGID BODY FIT</refinement_protocol>
                <refinement_space>REAL</refinement_space>
            </modelling>
        </modelling_list>
        <segmentation_list>
            <segmentation>
                <file>emd_72625_msk_1.map</file>
            </segmentation>
        </segmentation_list>
        <half_map_list>
            <half_map format="CCP4" size_kbytes="256001">
                <file>emd_72625_half_map_2.map.gz</file>
                <symmetry>
                    <space_group>1</space_group>
                </symmetry>
                <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
                <dimensions>
                    <col>400</col>
                    <row>400</row>
                    <sec>400</sec>
                </dimensions>
                <origin>
                    <col>0</col>
                    <row>0</row>
                    <sec>0</sec>
                </origin>
                <spacing>
                    <x>400</x>
                    <y>400</y>
                    <z>400</z>
                </spacing>
                <cell>
                    <a units="Å">528.0</a>
                    <b units="Å">528.0</b>
                    <c units="Å">528.0</c>
                    <alpha units="deg">90.0</alpha>
                    <beta units="deg">90.0</beta>
                    <gamma units="deg">90.0</gamma>
                </cell>
                <axis_order>
                    <fast>X</fast>
                    <medium>Y</medium>
                    <slow>Z</slow>
                </axis_order>
                <statistics>
                    <minimum>-0.69789135</minimum>
                    <maximum>1.1655295</maximum>
                    <average>0.0002679405</average>
                    <std>0.09264728</std>
                </statistics>
                <pixel_spacing>
                    <x units="Å">1.32</x>
                    <y units="Å">1.32</y>
                    <z units="Å">1.32</z>
                </pixel_spacing>
                <contour_list>
                    <contour primary="true">
                        <source>AUTHOR</source>
                    </contour>
                </contour_list>
                <label>::::EMDATABANK.org::::EMD-72625::::</label>
            </half_map>
            <half_map format="CCP4" size_kbytes="256001">
                <file>emd_72625_half_map_1.map.gz</file>
                <symmetry>
                    <space_group>1</space_group>
                </symmetry>
                <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
                <dimensions>
                    <col>400</col>
                    <row>400</row>
                    <sec>400</sec>
                </dimensions>
                <origin>
                    <col>0</col>
                    <row>0</row>
                    <sec>0</sec>
                </origin>
                <spacing>
                    <x>400</x>
                    <y>400</y>
                    <z>400</z>
                </spacing>
                <cell>
                    <a units="Å">528.0</a>
                    <b units="Å">528.0</b>
                    <c units="Å">528.0</c>
                    <alpha units="deg">90.0</alpha>
                    <beta units="deg">90.0</beta>
                    <gamma units="deg">90.0</gamma>
                </cell>
                <axis_order>
                    <fast>X</fast>
                    <medium>Y</medium>
                    <slow>Z</slow>
                </axis_order>
                <statistics>
                    <minimum>-0.751119</minimum>
                    <maximum>1.160019</maximum>
                    <average>0.00038727358</average>
                    <std>0.09230536</std>
                </statistics>
                <pixel_spacing>
                    <x units="Å">1.32</x>
                    <y units="Å">1.32</y>
                    <z units="Å">1.32</z>
                </pixel_spacing>
                <contour_list>
                    <contour primary="true">
                        <source>AUTHOR</source>
                    </contour>
                </contour_list>
                <label>::::EMDATABANK.org::::EMD-72625::::</label>
            </half_map>
        </half_map_list>
    </interpretation>
</emd>
